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Structure and transcriptional impact of divergent repetitive elements inserted within Phanerochaete chrysosporium strain RP-78 genes

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Abstract

We describe the structure, organization, and transcriptional impact of repetitive elements within the lignin-degrading basidiomycete, Phanerochaete chrysosporium. Searches of the P. chrysosporium genome revealed five copies of pce1, a ~1,750-nt non-autonomous, class II element. Alleles encoding a putative glucosyltransferase and a cytochrome P450 harbor pce insertions and produce incomplete transcripts. Class I elements included pcret1, an intact 8.14-kb gypsy-like retrotransposon inserted within a member of the multicopper oxidase gene family. Additionally, we describe a complex insertion of nested transposons within another putative cytochrome P450 gene. The disrupted allele lies within a cluster of >14 genes, all of which encode family 64 cytochrome P450s. Components of the insertion include a disjoint copia-like element, pcret3, the pol domain of a second retroelement, pcret2, and a duplication of an extended ORF of unknown function. As in the case of the pce elements, pcret1 and pcret2/3 insertions are confined to single alleles, transcripts of which are truncated. The corresponding wild-type alleles are apparently unaffected. In aggregate, P. chrysosporium harbors a complex array of repetitive elements, at least five of which directly influence expression of genes within families of structurally related sequences.

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Acknowledgments

This work was supported by U.S. Department of Energy grant no. DE-FG02-87ER13712 and the Millenium Institute for Fundamental and Applied Biology and by grant 1030495 from FONDECYT, Chile. Nucleotide sequence data reported are available in GenBank under accession numbers DQ400694, DQ444269, AY532142, DQ444268, and DQ677350.

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Author notes

  1. Philip Stewart

    Present address: Rocky Mountain Laboratories, NIAID, NIH, Hamilton, MT, USA

Authors and Affiliations

  1. Departamento de Genética Molecular y Microbiología, Facultad de Ciencias Biológicas, Pontificia Universidad Católica de Chile and Instituto Milenio de Biología Fundamental y Aplicada, Santiago, Chile

    Luis F. Larrondo, Paulo Canessa & Rafael Vicuña

  2. Department of Bacteriology, University of Wisconsin, Madison, WI, 53706, USA

    Philip Stewart & Amber Vanden Wymelenberg

  3. USDA Forest Products Laboratory, One Gifford Pinchot Drive, Madison, WI, 53726, USA

    Dan Cullen

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  1. Luis F. Larrondo
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  2. Paulo Canessa
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  3. Rafael Vicuña
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  4. Philip Stewart
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  5. Amber Vanden Wymelenberg
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  6. Dan Cullen
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Corresponding author

Correspondence to Dan Cullen.

Additional information

Nucleotide sequence data reported are available in GenBank under accession numbers DQ400694, DQ444269, AY532142, DQ444268 and DQ677350.

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Larrondo, L.F., Canessa, P., Vicuña, R. et al. Structure and transcriptional impact of divergent repetitive elements inserted within Phanerochaete chrysosporium strain RP-78 genes. Mol Genet Genomics 277, 43–55 (2007). https://doi.org/10.1007/s00438-006-0167-z

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  • DOI: https://doi.org/10.1007/s00438-006-0167-z

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